| Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:58:07 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE BiocSklearn PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 166/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| BiocSklearn 1.10.3 VJ Carey
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | |||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | [ OK ] | OK |
| Package: BiocSklearn |
| Version: 1.10.3 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:BiocSklearn.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings BiocSklearn_1.10.3.tar.gz |
| StartedAt: 2020-10-16 23:05:20 -0400 (Fri, 16 Oct 2020) |
| EndedAt: 2020-10-16 23:09:44 -0400 (Fri, 16 Oct 2020) |
| EllapsedTime: 263.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: BiocSklearn.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:BiocSklearn.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings BiocSklearn_1.10.3.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/BiocSklearn.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BiocSklearn/DESCRIPTION’ ... OK
* this is package ‘BiocSklearn’ version ‘1.10.3’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
.BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘BiocSklearn’ can be installed ... NOTE
Found the following notes/warnings:
Non-staged installation was used
See ‘/Users/biocbuild/bbs-3.11-bioc/meat/BiocSklearn.Rcheck/00install.out’ for details.
* checking installed package size ... NOTE
installed size is 32.7Mb
sub-directories of 1Mb or more:
ban_6_17 29.1Mb
hdf5 3.1Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in shell scripts ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
skIncrPPCA 5.550 4.743 5.622
skKMeans 0.075 0.008 14.191
skIncrPCA 0.049 0.012 24.798
skPCA 0.041 0.006 16.211
skIncrPartialPCA 0.038 0.006 12.810
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 3 NOTEs
See
‘/Users/biocbuild/bbs-3.11-bioc/meat/BiocSklearn.Rcheck/00check.log’
for details.
BiocSklearn.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL BiocSklearn ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’ * installing *source* package ‘BiocSklearn’ ... ** using non-staged installation via StagedInstall field ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (BiocSklearn)
BiocSklearn.Rcheck/tests/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> #library(testthat)
> #library(restfulSE)
>
> #test_check("BiocSklearn")
>
>
> proc.time()
user system elapsed
0.340 0.076 0.435
BiocSklearn.Rcheck/BiocSklearn-Ex.timings
| name | user | system | elapsed | |
| H5matref | 0.001 | 0.001 | 0.002 | |
| SklearnEls | 1.755 | 1.741 | 2.481 | |
| h5mat | 0.016 | 0.001 | 0.017 | |
| skIncrPCA | 0.049 | 0.012 | 24.798 | |
| skIncrPCA_h5 | 0.012 | 0.000 | 0.013 | |
| skIncrPPCA | 5.550 | 4.743 | 5.622 | |
| skIncrPartialPCA | 0.038 | 0.006 | 12.810 | |
| skKMeans | 0.075 | 0.008 | 14.191 | |
| skPCA | 0.041 | 0.006 | 16.211 | |
| skPartialPCA_step | 0.007 | 0.000 | 0.009 | |